# List of top-scoring protein chains for T0300.t2k-w0.5 hidden Markov model. # HMM and HMM E-value scores computed by SAM (c) 1992-2001 Regents of the University of California, Santa Cruz # Sequence Alignment and Modeling Software System # http://www.cse.ucsc.edu/research/compbio/sam.html # ----------------- Citations (SAM, SAM-T99, HMMs) -------------------- # R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: # Extension and analysis of the basic method, CABIOS 12:95-107, 1996. # K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting # remote protein homologies, Bioinformatics 14(10):846-856, 1998. # A. Krogh et al., Hidden Markov models in computational biology: # Applications to protein modeling, JMB 235:1501-1531, Feb 1994. # # FSSP representative for each protein chain taken from FSSP: # ------------------Citations (FSSP) ----------------------------------- # L. Holm and C. Sander (1996) Mapping the protein universe. Science 273:595-602. # #SCOP domains found in each protein chain taken from SCOP: # ------------------Citations (SCOP) ----------------------------------- #Murzin A. G., Brenner S. E., Hubbard T., Chothia C. (1995). #SCOP: a structural classification of proteins database for the investigation of sequences and structures. #J. Mol. Biol. 247, 536-540. Sequence_ID Length Target_Evalue FSSP-rep SCOP_domain SCOP_suid 5S 5N 12S 6S 12S 10N 1debA 54 1.80e-01 1debA h.1.18.1 45660 1u2uA 32 7.05e-01 1azsA 220 1.20e+00 1azsA d.58.29.1 39416 1culA 217 1.20e+00 1azsA d.58.29.1 39417 1cs4A 225 1.21e+00 1azsA d.58.29.1 39418 1p9iA 31 1.31e+00 h.1.10.1 94390 1hkkA 364 1.32e+00 c.1.8.5,d.26.3.1 90634,90635 1hkmA 365 1.32e+00 c.1.8.5,d.26.3.1 90636,90637 1lg2A 365 1.33e+00 c.1.8.5,d.26.3.1 77950,77951 1guvA 366 1.33e+00 c.1.8.5,d.26.3.1 83333,83334 1wb0A 445 1.80e+00 1u2uB 32 5.14e+00 1q8kA 308 5.63e+00 b.40.4.5,d.58.51.1 104556,104557 1itxA 419 7.19e+00 c.1.8.5,d.26.3.1 71425,71426 2hlpA 303 8.63e+00 1ceqA c.2.1.5,d.162.1.1 30141,42108 1fmhA 33 9.72e+00 1fmhB k.6.1.1 46409 1c6s 87 9.82e+00 1ctj a.3.1.1 15806 1tmzA 32 1.03e+01 1tmzA k.1.1.1 46376 1o6zA 303 1.17e+01 c.2.1.5,d.162.1.1 81107,81108 2ghpA 292 1.29e+01 1eg3A 261 1.47e+01 1eg3A a.39.1.7,a.39.1.7,b.72.1.1 17376,17377,27805 1hr0W 71 1.50e+01 1ah9 b.40.4.5 25329 2bflA 227 1.54e+01 1sb2A 133 1.55e+01 2cw9A 194 1.66e+01 1xvxA 312 1.66e+01 2etlA 228 1.71e+01 1q35A 320 1.73e+01 c.94.1.1 95661 1d3aA 303 1.89e+01 1ceqA c.2.1.5,d.162.1.1 30143,42110 1dofA 403 2.05e+01 1c3cA a.127.1.1 19429 2aw4G 176 2.11e+01 1xvyA 309 2.13e+01 1t6fA 37 2.16e+01 h.1.28.1 106565 1go4E 100 2.20e+01 h.1.22.1 70296 1h67A 108 2.21e+01 a.40.1.1 65643 1ns5A 155 2.23e+01 c.116.1.3 80705 1bmc 221 2.46e+01 1a7tA d.157.1.1 42038 2az4A 429 2.48e+01 1p4wA 99 2.56e+01 a.4.6.2 87783 1h4xA 117 2.60e+01 1auz c.13.2.1 60626 1dxkA 227 2.65e+01 1a7tA d.157.1.1 42036 1mqoA 227 2.66e+01 d.157.1.1 103846 1h4yA 117 2.70e+01 1auz c.13.2.1 60628 2bskB 90 2.71e+01 1cyu 98 2.84e+01 1stfI d.17.1.2 38004 1gd4A 98 2.86e+01 d.17.1.2 60438 1x1pA 212 3.00e+01 1mvwB 145 3.12e+01 i.15.1.1 79524 1hleA 345 3.17e+01 1ovaA e.1.1.1 42618 1io2A 213 3.27e+01 1ekeA c.55.3.1 62612 1ce9A 34 3.28e+01 1ce9C h.1.3.1 45483 1z5mA 286 3.33e+01 1uu9A 286 3.33e+01 d.144.1.7 100002 1hruA 188 3.34e+01 1hruA d.115.1.1 40926 1vqoG 348 3.35e+01 1h1wA 289 3.35e+01 d.144.1.7 83460 1uu3A 310 3.56e+01 d.144.1.7 99999 2mysB 166 3.61e+01 1wdcB a.39.1.5 17308 2aucA 126 3.83e+01 1eg0D 146 3.90e+01 1rss i.1.1.1 45810 1vf8A 377 3.91e+01 1md7A 328 3.94e+01 b.47.1.2,g.18.1.1 91243,91244 1fkaG 151 3.96e+01 i.1.1.3 45850 1fjgG 156 3.99e+01 1rss a.75.1.1 18394 1n32G 155 3.99e+01 a.75.1.1 79876 1p65A 73 4.00e+01 d.254.1.1 94156 1md8A 329 4.01e+01 b.47.1.2,g.18.1.1 91245,91246 1x18F 154 4.02e+01 1wbpA 397 4.05e+01 1ci6B 63 4.06e+01 1ci6B h.1.3.1 45549 1dr9A 201 4.20e+01 1dr9A b.1.1.1,b.1.1.3 19762,21684 1i8lA 208 4.22e+01 1dr9A b.1.1.1,b.1.1.3 61970,61971 1rss 151 4.22e+01 1rss a.75.1.1 18392 2eulA 156 4.32e+01 1yocA 147 4.42e+01 1zj8A 566 4.48e+01 1tp4A 97 4.50e+01 a.189.1.1 107183 1js8A 394 4.53e+01 a.86.1.1,b.112.1.1 67219,67220 1konA 249 4.55e+01 e.39.1.1 72823 1h89A 64 4.56e+01 h.1.3.1 65724 1lsi 66 4.57e+01 3ebx g.7.1.1 44422 1xm9A 457 4.60e+01 1s1cX 71 4.63e+01 h.1.27.1 98342 1nwbA 124 4.65e+01 b.124.1.1 86296 1rtyA 193 4.85e+01 a.25.2.2 97828 1gpzA 399 4.88e+01 b.47.1.2,g.18.1.1,g.18.1.1 70302,70303,70304 1mugA 168 4.93e+01 1mugA c.18.1.2 31030 1dv4G 135 4.99e+01 i.1.1.3 45876 2a6xA 226 4.99e+01 2a6vA 226 5.01e+01 1jw9B 249 5.64e+01 c.111.1.1 67377 2biyA 310 5.65e+01 1og6A 298 5.80e+01 c.1.7.1 86984 1fnuA 221 5.81e+01 3seb b.40.2.2,d.15.6.1 25212,37801 1lp1A 58 5.90e+01 a.8.1.1 84664 1ur3M 319 5.94e+01 c.1.7.1 99806 1tidB 119 5.98e+01 c.13.2.1 107000 1wlqA 83 5.99e+01 h.1.28.1 109398 1gotG 73 6.00e+01 1tbgE a.137.3.1 19629 1ytaA 180 6.04e+01 1zhjA 297 6.37e+01 1th8B 116 6.48e+01 c.13.2.1 106909 2ftbA 125 6.50e+01 1mruA 311 6.55e+01 d.144.1.7 79425 1zhmA 238 6.58e+01 1xx9A 238 6.58e+01 1zizA 293 6.72e+01 1r82A 283 6.84e+01 c.68.1.9 97217 2mtaC 147 6.84e+01 2mtaC a.3.1.1 15908 1xxfA 238 6.84e+01 1uiiA 83 6.86e+01 h.1.28.1 107864 1hbxA 92 6.89e+01 1mnmA d.88.1.1 60930 1jalA 363 6.95e+01 c.37.1.8,d.15.10.2 84138,84139 1zi4A 294 6.97e+01 1lzjA 292 6.98e+01 c.68.1.9 74352 1sflA 238 7.08e+01 1ktjA 129 7.11e+01 b.1.18.7 72974 1sfjA 238 7.11e+01 1mg2D 155 7.13e+01 a.3.1.1 79062 1x7sA 127 7.20e+01 1wt1A 292 7.24e+01 1zi5A 293 7.30e+01 1ja9A 274 7.33e+01 c.2.1.2 62817 1r7yA 283 7.38e+01 c.68.1.9 97214 1rykA 69 7.48e+01 a.60.11.1 98105 1k6oB 103 7.48e+01 d.88.1.1 68227 1a9v 129 7.51e+01 1a9v b.1.18.7 21946 1lziA 292 7.58e+01 c.68.1.9 74351 1wmiB 67 7.72e+01 1h47A 161 7.74e+01 1tbgE 68 7.81e+01 1tbgE a.137.3.1 19630 1hjbA 87 7.87e+01 1hjbA h.1.3.1 61073 1gx1A 160 7.90e+01 d.79.5.1 70675 1f5vA 240 7.92e+01 1bkjA d.90.1.1 40255 2amtA 159 7.92e+01 1ithA 141 7.97e+01 1ithA a.1.1.2 15623 1xfbA 365 7.99e+01 1wypA 136 8.08e+01 1yqnA 161 8.18e+01 1oqyA 368 8.21e+01 a.5.2.1,a.5.2.1,a.189.1.1,d.15.1.1 93439,93440,93441,93442 1lssA 140 8.25e+01 c.2.1.9 74246 1hqvA 191 8.30e+01 1hqvA a.39.1.8 61160 1a0rG 65 8.32e+01 1tbgE a.137.3.1 19639 2trcG 68 8.33e+01 1tbgE a.137.3.1 19634 1jroB 777 8.54e+01 d.41.1.1,d.133.1.1 67141,67142 1yf2A 425 8.63e+01 2cayA 145 8.67e+01 1fmhB 33 8.72e+01 1fmhB k.6.1.1 46410 1gu4A 78 8.75e+01 h.1.3.1 83317 1gm5A 780 8.97e+01 a.24.21.1,b.40.4.9,c.37.1.19,c.37.1.19 65298,65299,65300,65301